The Photo Injector Test facility at DESY, Zeuthen Site (PITZ) is one of the leading producers of high brightness electron beams for linac based Free Electron Lasers (FELs) with a specific focus on the requirements of FLASH and the European XFEL. The main activities at PITZ are devoted to the detailed characterization and optimization of electron sources yielding to an extremely small transverse beam emittance. The cathode laser pulse shaping is considered as one of the key issues for the high brightness photo injector. Beam dynamics simulations show that the injector performance could be further improved by replacing the typical cylindrically shaped PITZ bunches by uniformly filled 3D ellipsoidal shaped electron beams. A set of numerical simulations were performed to study the beam dynamics of uniformly filled 3D ellipsoidal bunches with 1 nC charge in order to find an optimum PITZ machine setup which will yield the best transverse emittance. Simulation results comparing both options of cylindrical and 3D ellipsoidal beams are also presented and discussed.